moanin

This is the development version of moanin; for the stable release version, see moanin.

An R Package for Time Course RNASeq Data Analysis

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DOI: 10.18129/B9.bioc.moanin

Bioconductor version: Development (3.23)

Simple and efficient workflow for time-course gene expression data, built on publictly available open-source projects hosted on CRAN and bioconductor. moanin provides helper functions for all the steps required for analysing time-course data using functional data analysis: (1) functional modeling of the timecourse data; (2) differential expression analysis; (3) clustering; (4) downstream analysis.

Author: Elizabeth Purdom [aut] ORCID iD ORCID: 0000-0001-9455-7990 , Nelle Varoquaux [aut, cre] ORCID iD ORCID: 0000-0002-8748-6546

Maintainer: Nelle Varoquaux <nelle.varoquaux at gmail.com>

Citation (from within R, enter citation("moanin")):

Installation

To install this package, start R (version "4.6") and enter:


if (!require("BiocManager", quietly = TRUE))
 install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("moanin")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("moanin")

The Moanin Package HTML R Script

Reference Manual PDF

README Text

LICENSE Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews Clustering, DifferentialExpression, GeneExpression, Microarray, RNASeq, Software, TimeCourse

Version 1.19.0

In Bioconductor since BioC 3.13 (R-4.1) (4.5 years)

License BSD 3-clause License + file LICENSE

Depends R (>= 4.0), SummarizedExperiment, topGO, stats

Imports S4Vectors, MASS (>= 1.0.0), limma, viridis, edgeR, graphics, methods, grDevices, reshape2, NMI, zoo, ClusterR, splines, matrixStats

System Requirements

URL

Suggests testthat (>= 1.0.0), timecoursedata, knitr, rmarkdown, markdown, covr, BiocStyle

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Package Archives

Follow Installation instructions to use this package in your R session.

Source Package moanin_1.19.0.tar.gz

Windows Binary (x86_64) moanin_1.19.0.zip

macOS Binary (x86_64) moanin_1.19.0.tgz

macOS Binary (arm64) moanin_1.19.0.tgz

Source Repository git clone https://git.bioconductor.org/packages/moanin

Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/moanin

Bioc Package Browser https://code.bioconductor.org/browse/moanin/

Package Short Url https://bioconductor.org/packages/moanin/

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